RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14349
(91 letters)
>gnl|CDD|240302 PTZ00169, PTZ00169, ADP/ATP transporter on adenylate translocase;
Provisional.
Length = 300
Score = 127 bits (320), Expect = 1e-37
Identities = 52/88 (59%), Positives = 66/88 (75%), Gaps = 3/88 (3%)
Query: 5 SDFVHDFVVGGIAATISKTTVAPIERVKILLQIQDSSKNIAA---RRYRGIGDCFVRIHK 61
++F DF++GGI+A ISKT VAPIERVK+L+Q QDS I + RY GI +CF R+ K
Sbjct: 5 TNFATDFLMGGISAAISKTAVAPIERVKMLIQTQDSIPEIKSGKVPRYSGIVNCFRRVSK 64
Query: 62 EQGTLSFWRGNSANILRYFPAQALNFEY 89
EQG LS WRGN+AN++RYFP QA NF +
Sbjct: 65 EQGVLSLWRGNTANVIRYFPTQAFNFAF 92
Score = 32.8 bits (75), Expect = 0.013
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 4 QSDFVHDFVV----GGIAATISKTTVAPIERVKILLQIQDSSKNIAARRYRGIGDCFVRI 59
++DF F V GG+A S V P++ + L D K R + G+ DC ++I
Sbjct: 106 KTDFWKFFGVNILSGGLAGASSLLIVYPLDFARTRLA-SDIGKG-GDREFTGLFDCLMKI 163
Query: 60 HKEQGTLSFWRG 71
K+ G LS ++G
Sbjct: 164 SKQTGFLSLYQG 175
Score = 32.4 bits (74), Expect = 0.017
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 49 YRGIGDCFVRIHKEQGTLSFWRGNSANILR 78
Y G DC+ +I K +G F++G AN+LR
Sbjct: 252 YTGTLDCWKKILKNEGLGGFFKGAWANVLR 281
>gnl|CDD|215754 pfam00153, Mito_carr, Mitochondrial carrier protein.
Length = 96
Score = 93.9 bits (234), Expect = 6e-27
Identities = 31/85 (36%), Positives = 47/85 (55%), Gaps = 3/85 (3%)
Query: 3 GQSDFVHDFVVGGIAATISKTTVAPIERVKILLQIQDSSKNIAARRYRGIGDCFVRIHKE 62
F+ + GGIA I+ T P++ VK LQ + + R+Y+GI DCF +I+KE
Sbjct: 1 SPLSFLASLLAGGIAGAIAATVTYPLDVVKTRLQSSAAGGS---RKYKGILDCFKKIYKE 57
Query: 63 QGTLSFWRGNSANILRYFPAQALNF 87
+G ++G N+LR PA A+ F
Sbjct: 58 EGIRGLYKGLLPNLLRVAPAAAIYF 82
>gnl|CDD|144788 pfam01318, Bromo_coat, Bromovirus coat protein.
Length = 165
Score = 28.0 bits (62), Expect = 0.57
Identities = 9/38 (23%), Positives = 18/38 (47%)
Query: 12 VVGGIAATISKTTVAPIERVKILLQIQDSSKNIAARRY 49
V G + +++ + ++ L + DSSK + A Y
Sbjct: 76 VAGTVKVCVTEKQDSAAASFQVALAVADSSKEVVAAMY 113
>gnl|CDD|143415 cd07097, ALDH_KGSADH-YcbD, Bacillus subtilis NADP+-dependent
alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like.
Kinetic studies of the Bacillus subtilis ALDH-like ycbD
protein, which is involved in d-glucarate/d-galactarate
utilization, reveal that it is a NADP+-dependent,
alpha-ketoglutaric semialdehyde dehydrogenase (KGSADH).
KGSADHs (EC 1.2.1.26) catalyze the NAD(P)+-dependent
conversion of KGSA to alpha-ketoglutarate.
Interestingly, the NADP+-dependent, tetrameric,
2,5-dioxopentanoate dehydrogenase (EC=1.2.1.26), an
enzyme involved in the catabolic pathway for D-arabinose
in Sulfolobus solfataricus, also clusters in this group.
This CD shows a distant phylogenetic relationship to the
Azospirillum brasilense KGSADH-II (-III) group.
Length = 473
Score = 27.6 bits (62), Expect = 0.76
Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 11/66 (16%)
Query: 26 APIERVKILLQIQDSSKNIAARRYRGIGDCFVRIHKEQG-TLSFWRGN---SANILRYFP 81
+P R IL + D + AR+ + R E+G TL RG + I RY+
Sbjct: 57 SPEARADILDKAGDE---LEARKEE-LARLLTR---EEGKTLPEARGEVTRAGQIFRYYA 109
Query: 82 AQALNF 87
+AL
Sbjct: 110 GEALRL 115
>gnl|CDD|235216 PRK04057, PRK04057, 30S ribosomal protein S3Ae; Validated.
Length = 203
Score = 26.4 bits (59), Expect = 2.2
Identities = 11/30 (36%), Positives = 18/30 (60%), Gaps = 2/30 (6%)
Query: 6 DFVHDFVVGGIAATISKT--TVAPIERVKI 33
+FV + V G +A+ I K + P+ RV+I
Sbjct: 149 EFVQEIVFGKLASEIYKEAKKIYPLRRVEI 178
>gnl|CDD|233697 TIGR02040, PpsR-CrtJ, transcriptional regulator PpsR. This model
represents the transcriptional regulator PpsR which is
strictly associated with photosynthetic proteobacteria
and found in photosynthetic operons. PpsR has been
reported to be a repressor. These proteins contain a
Helix-Turn_Helix motif of the "fis" type (pfam02954)
[Energy metabolism, Photosynthesis].
Length = 442
Score = 26.3 bits (58), Expect = 2.5
Identities = 11/37 (29%), Positives = 15/37 (40%)
Query: 14 GGIAATISKTTVAPIERVKILLQIQDSSKNIAARRYR 50
IS V ER I+L I+D S+ + R
Sbjct: 335 AQTEVEISAAWVDQGERPLIVLVIRDISRRLTMRDVP 371
>gnl|CDD|176101 cd08759, Type_III_cohesin_like, Cohesin domain, interaction
partner of dockerin. Bacterial cohesin domains bind to
a complementary protein domain named dockerin, and this
interaction is required for the formation of the
cellulosome, a cellulose-degrading complex. Two
specific calcium-dependent interactions between cohesin
and dockerin appear to be essential for cellulosome
assembly, type I and type II. This subfamily represents
type III cohesins and closely related domains.
Length = 160
Score = 26.2 bits (58), Expect = 2.5
Identities = 13/33 (39%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 14 GGIAATISKTTVAPIERVKILLQIQDSSKNIAA 46
G ++ SKTTV E + I L Q KN+ A
Sbjct: 1 GTLSLVPSKTTVKAGETITIDLYGQG-LKNVNA 32
>gnl|CDD|182724 PRK10780, PRK10780, periplasmic chaperone; Provisional.
Length = 165
Score = 25.2 bits (55), Expect = 5.2
Identities = 9/19 (47%), Positives = 14/19 (73%)
Query: 29 ERVKILLQIQDSSKNIAAR 47
ER KIL +IQ + K++A +
Sbjct: 117 ERNKILTRIQTAVKSVANK 135
>gnl|CDD|238375 cd00733, GlyRS_alpha_core, Class II Glycyl-tRNA synthetase (GlyRS)
alpha subunit core catalytic domain. GlyRS functions as
a homodimer in eukaryotes, archaea and some bacteria and
as a heterotetramer in the remainder of prokaryotes and
in arabidopsis. It is responsible for the attachment of
glycine to the 3' OH group of ribose of the appropriate
tRNA. This domain is primarily responsible for the
ATP-dependent formation of the enzyme bound
aminoacyl-adenylate. This alignment contains only
sequences from the GlyRS form which heterotetramerizes.
The homodimer form of GlyRS is in a different family of
class II aaRS. Class II assignment is based upon
structure and the presence of three characteristic
sequence motifs.
Length = 279
Score = 25.0 bits (55), Expect = 5.8
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 1/69 (1%)
Query: 13 VGGIA-ATISKTTVAPIERVKILLQIQDSSKNIAARRYRGIGDCFVRIHKEQGTLSFWRG 71
VGGI IS +ER+ + LQ D+ +I + GD F++ EQ +F
Sbjct: 144 VGGIPCKPISVEITYGLERIAMYLQGVDNVYDIEWNKKITYGDVFLQNEIEQSVYNFEYA 203
Query: 72 NSANILRYF 80
N + + F
Sbjct: 204 NVDMLFQLF 212
>gnl|CDD|224264 COG1345, FliD, Flagellar capping protein [Cell motility and
secretion].
Length = 483
Score = 25.1 bits (55), Expect = 7.5
Identities = 6/20 (30%), Positives = 10/20 (50%)
Query: 10 DFVVGGIAATISKTTVAPIE 29
+ G+ ++ KTT AP
Sbjct: 257 TDAIEGVTLSLKKTTEAPAT 276
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.324 0.138 0.425
Gapped
Lambda K H
0.267 0.0580 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 4,590,754
Number of extensions: 365043
Number of successful extensions: 435
Number of sequences better than 10.0: 1
Number of HSP's gapped: 433
Number of HSP's successfully gapped: 17
Length of query: 91
Length of database: 10,937,602
Length adjustment: 58
Effective length of query: 33
Effective length of database: 8,365,070
Effective search space: 276047310
Effective search space used: 276047310
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 53 (24.5 bits)